SMTL ID : 8s7g.1

Cryo-EM structure of Pseudomonas aeruginosa Recombinase A (RecA) in complex with LexAS125A mutant

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-11-mer

Ligands

11 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain C: T.87, D.158 Chain M: K.264 Ligands: AGS.2 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.87 MG.3: 4 residues within 4Å: Chain C: K.264 Chain D: T.87, D.158 Ligands: AGS.4 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.87 MG.5: 3 residues within 4Å: Chain D: K.264 Chain E: T.87 Ligands: AGS.6 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:T.87 MG.7: 3 residues within 4Å: Chain F: T.87, D.158 Ligands: AGS.8 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:T.87 MG.9: 3 residues within 4Å: Chain G: T.87, D.158 Ligands: AGS.10 1 PLIP interactions: 1 interactions with chain G Metal complexes: G:T.87 MG.11: 3 residues within 4Å: Chain H: T.87, D.158 Ligands: AGS.12 1 PLIP interactions: 1 interactions with chain H Metal complexes: H:T.87 MG.13: 3 residues within 4Å: Chain H: K.264 Chain I: T.87 Ligands: AGS.14 1 PLIP interactions: 1 interactions with chain I Metal complexes: I:T.87 MG.15: 3 residues within 4Å: Chain J: T.87, D.158 Ligands: AGS.16 1 PLIP interactions: 1 interactions with chain J Metal complexes: J:T.87 MG.17: 3 residues within 4Å: Chain K: T.87, D.158 Ligands: AGS.18 2 PLIP interactions: 2 interactions with chain K Metal complexes: K:T.87, K:D.158 MG.19: 3 residues within 4Å: Chain M: T.87, D.158 Ligands: AGS.20 2 PLIP interactions: 2 interactions with chain M Metal complexes: M:T.87, M:D.158 MG.21: 4 residues within 4Å: Chain K: K.264 Chain N: T.87, D.158 Ligands: AGS.22 2 PLIP interactions: 2 interactions with chain N Metal complexes: N:T.87, N:D.158

11 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)(Covalent)

AGS.2: 19 residues within 4Å: Chain C: E.82, S.83, S.84, G.85, K.86, T.87, T.88, Y.117, S.254, Y.278 Chain M: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Ligands: MG.1 14 PLIP interactions: 8 interactions with chain C, 6 interactions with chain M Hydrogen bonds: C:P.81, C:S.83, C:S.84, C:G.85, C:T.87, C:T.88, C:S.254, M:K.262, M:K.264, M:K.264 pi-Stacking: C:Y.117 Salt bridges: M:K.262, M:K.264, M:K.264 AGS.4: 19 residues within 4Å: Chain C: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain D: E.82, S.83, S.84, G.85, K.86, T.87, T.88, D.114, Y.117, Y.278 Ligands: MG.3 12 PLIP interactions: 9 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:S.83, D:S.84, D:K.86, D:T.87, D:T.88, D:D.114, D:Y.278, C:F.231, C:N.263, C:K.264 pi-Stacking: D:Y.117, D:Y.117 AGS.6: 19 residues within 4Å: Chain D: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain E: E.82, S.83, S.84, G.85, K.86, T.87, T.88, D.114, Y.117, Y.278 Ligands: MG.5 15 PLIP interactions: 9 interactions with chain E, 6 interactions with chain D Hydrogen bonds: E:S.83, E:S.83, E:S.84, E:G.85, E:K.86, E:K.86, E:T.87, E:T.88, D:F.231, D:K.262, D:K.264, D:K.264 Salt bridges: E:K.86, D:K.262, D:K.264 AGS.8: 20 residues within 4Å: Chain E: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain F: E.82, S.83, S.84, G.85, K.86, T.87, T.88, D.114, Y.117, R.241, Y.278 Ligands: MG.7 18 PLIP interactions: 12 interactions with chain F, 6 interactions with chain E Hydrogen bonds: F:S.83, F:S.84, F:G.85, F:K.86, F:K.86, F:T.87, F:T.88, F:D.114, F:R.241, F:Y.278, E:F.231, E:K.262, E:N.263, E:K.264, E:K.264 Salt bridges: F:K.86, E:K.264 pi-Stacking: F:Y.117 AGS.10: 18 residues within 4Å: Chain F: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain G: S.83, S.84, G.85, K.86, T.87, T.88, D.114, Y.117, Y.278 Ligands: MG.9 21 PLIP interactions: 15 interactions with chain G, 6 interactions with chain F Hydrogen bonds: G:S.83, G:S.83, G:S.84, G:G.85, G:K.86, G:K.86, G:T.87, G:T.88, G:T.88, G:D.114, G:S.254, G:S.254, F:F.231, F:K.262, F:K.264, F:K.264 Salt bridges: G:K.86, F:K.262, F:K.264 pi-Stacking: G:Y.117, G:Y.117 AGS.12: 18 residues within 4Å: Chain G: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain H: S.83, S.84, G.85, K.86, T.87, T.88, D.114, Y.117, Y.278 Ligands: MG.11 18 PLIP interactions: 13 interactions with chain H, 5 interactions with chain G Hydrogen bonds: H:S.83, H:S.83, H:S.83, H:G.85, H:K.86, H:K.86, H:T.87, H:T.88, H:D.114, H:D.114, G:F.231, G:K.262, G:K.264 Salt bridges: H:K.86, G:K.264, G:K.264 pi-Stacking: H:Y.117, H:Y.117 AGS.14: 19 residues within 4Å: Chain H: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain I: E.82, S.83, G.85, K.86, T.87, T.88, E.110, Y.117, S.254, Y.278 Ligands: MG.13 16 PLIP interactions: 12 interactions with chain I, 4 interactions with chain H Hydrogen bonds: I:S.83, I:S.84, I:G.85, I:K.86, I:K.86, I:T.87, I:T.88, I:D.114, I:S.254, I:Y.278, H:F.231, H:K.264 Salt bridges: I:K.86, H:K.264, H:K.264 pi-Stacking: I:Y.117 AGS.16: 18 residues within 4Å: Chain I: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain J: S.83, S.84, G.85, K.86, T.87, T.88, D.114, Y.117, Y.278 Ligands: MG.15 11 PLIP interactions: 10 interactions with chain J, 1 interactions with chain I Hydrogen bonds: J:S.83, J:S.84, J:G.85, J:K.86, J:K.86, J:T.87, J:T.87, J:D.114 Salt bridges: J:K.86, I:K.264 pi-Stacking: J:Y.117 AGS.18: 20 residues within 4Å: Chain J: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain K: P.81, E.82, S.83, S.84, G.85, K.86, T.87, D.114, Y.117, D.158, Y.278 Ligands: MG.17 15 PLIP interactions: 12 interactions with chain K, 3 interactions with chain J Hydrogen bonds: K:S.83, K:S.83, K:S.84, K:G.85, K:K.86, K:K.86, K:T.87, K:T.88, K:D.114, J:K.262, J:K.262 Salt bridges: K:K.86, J:K.264 pi-Stacking: K:Y.117, K:Y.117 AGS.20: 12 residues within 4Å: Chain M: S.83, S.84, G.85, K.86, T.87, T.88, E.110, D.114, Y.117, D.158, Y.278 Ligands: MG.19 8 PLIP interactions: 8 interactions with chain M Hydrogen bonds: M:S.83, M:G.85, M:K.86, M:T.87, M:T.87, M:D.114, M:Y.117 Salt bridges: M:K.86 AGS.22: 21 residues within 4Å: Chain K: F.231, K.262, N.263, K.264, V.265, S.266, P.267, P.268 Chain N: P.81, E.82, S.83, S.84, G.85, K.86, T.87, T.88, D.114, Y.117, D.158, Y.278 Ligands: MG.21 13 PLIP interactions: 5 interactions with chain K, 8 interactions with chain N Hydrogen bonds: K:F.231, K:K.262, K:K.264, N:G.85, N:G.85, N:K.86, N:K.86, N:T.87, N:T.88, N:D.114 Salt bridges: K:K.264, K:K.264, N:K.86

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vascon, F. et al., Snapshots of Pseudomonas aeruginosa SOS response reveal structural requisites for LexA autoproteolysis. Iscience (2025)

Release Date

2025-01-15

Peptides

LexA repressor: AB
Protein RecA: CDEFGHIJKMN

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
E

E
F

F
G

G
H

H
I

I
J

J
K

K
L

M
C

N
M

LexA repressor

Protein RecA